{"id":"W4296800185","doi":"10.1371/journal.pbio.3001804","title":"Pathogen evolution during vaccination campaigns","year":2022,"lang":"en","type":"article","venue":"PLoS Biology","topic":"SARS-CoV-2 and COVID-19 Research","field":"Medicine","cited_by":41,"is_retracted":false,"has_abstract":true,"ca_institutions":"Queen's University","funders":"Biotechnology and Biological Sciences Research Council; Natural Sciences and Engineering Research Council of Canada; National Institute of General Medical Sciences; Directorate for Biological Sciences; Centre National de la Recherche Scientifique; Agence Nationale de la Recherche; U.S. Department of Agriculture; National Institutes of Health; National Science Foundation","keywords":"Biology; Vaccination; Pathogen; Context (archaeology); Virology; Immunology","routes":{"ca_aff":true,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":false},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.000180319,0.00006814588,0.0001341826,0.000172225,0.0001726864,0.000003523963,0.00009470302,0.00005651335,0.0002034383],"category_scores_gemma":[0.0001407483,0.00006244428,0.00004727205,0.0002249353,0.00001823745,0.00002424067,0.0001380039,0.0002198553,0.00008056547],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.0003220754,"about_ca_system_score_gemma":0.0001108026,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00004047303,"about_ca_topic_score_gemma":0.000009031285,"domain_scores_codex":[0.9991422,0.0001285139,0.0001254081,0.0002220296,0.0001448678,0.0002370185],"domain_scores_gemma":[0.9996594,0.0000449639,0.00003486803,0.000184477,0.00005785606,0.00001846514],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"observational","study_design_scores_codex":[0.0001574002,0.0001346046,0.1910903,0.00003119311,0.0000303806,0.00002678523,0.0001441103,5.442712e-7,0.8071874,0.0004594993,0.0000566551,0.0006811689],"study_design_scores_gemma":[0.005487927,0.002611773,0.4903343,0.00002403994,0.0001370474,0.0004035486,0.001310414,0.00241545,0.3871171,0.004358261,0.1053326,0.0004675868],"study_design_candidate":"bench_or_experimental","study_design_consensus":null,"genre_codex":"empirical","genre_gemma":"empirical","genre_scores_codex":[0.9967189,0.0003177736,0.00009914506,0.0003120615,0.0001075521,0.000266197,0.00001982256,0.00007878824,0.002079697],"genre_scores_gemma":[0.9957131,0.000001569792,0.00003819249,0.003837053,0.0001625299,0.0001426284,0.00002587363,0.00001147121,0.00006755649],"genre_candidate":"empirical","genre_consensus":"empirical","teacher_disagreement_score":0.4200702,"threshold_uncertainty_score":0.2546404,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.03904286336828827,"score_gpt":0.3258075617435936,"score_spread":0.2867646983753053,"validation_status":"score_only:v0-immature-baseline","note":"Baseline scores from an immature model (maturity gate not passed). Scores rank; they never assert a category."}}